Introduction:

Extrachromosomal circular DNA (eccDNA) is a specific type of DNA molecule that has been observed in different species for decades. It is characterized as small and highly dispersed circular DNA molecules, including spcDNA, t-circles, microDNA, and ecDNA, based on their size and sequence. Recent evidence suggests that eccDNA plays an important role in rapid adaptation and contributes to genomic instability, which leads to genetic diversity and evolution. Moreover, eccDNA has diverse and significant biological functions, which are implicated in the development of various diseases including cancer. Therefore, characterizing the full landscape of eccDNA has become critical for understanding its roles in genome regulation, evolution, and disease pathogenesis.

eccDNA-pipe is a pipeline for detecting Extrachromosomal Circular DNA from NGS/TGS in Circle-Map, AmpliconArchitect, CReSIL